Upgrading 3.6.5 to 3.6.7

[TacticalNuke]

I have a number of hacks on my 3.6.5 board. Tonight I used Eva200's upgrade method but ran into [this problem. This is my first upgrade with hacks installed and I have the following hacks:

FlashChat Admin Panel
FlashChat Integration
Limited Guest Viewing
Members who are using flashchat
Members who are using flashchat (add-on)
PhotoPlog Pro
vBSEO Sitemap Generator
Welcome Headers
Zoints SEO
Zoints Thread Tags

My question is two-fold:

1. How can I keep from getting that error and what do I need to do to my hacks. Do I need to uninstall all my hacks, will I need to reinstall them, or how does that all work?

2. How can I make sure I keep my Zoints thread tags, PhotoPlog pictures, etc.?

Since this is my first foray into mods, I sort of don't understand why I can't just install a fresh copy of vBulletin (using the upgrade method above) and my current database. Why does this cause errors if the mods aren't installed on the fresh copy?

Thanks for the help.

-TN